hgTests: A wrapper function to implement the Hypergeometric test,...
In Bioconductor/ppiStats: Protein-Protein Interaction Statistical Package

Description Usage Arguments Value Author(s)

This function takes the instances of the hyperGParams and conducts a (conditional) test for over/under representation of some category under the Hypergeometric distribution.

ppiHGTest4GO(parameter, filename, append=TRUE,
                      label = "Experiment name here",
                      typeGeneSet = "Describe the gene set here",
                      cs=50)

ppiHGTest4PFAM(parameter, filename, append = TRUE,
                           label = "Experiment Name Here",
                           typeGeneSet = "Describe the Gene Set Here",
                           cs = 50)

`parameter`	An object of hyperGParams.
`filename`	A character vector. The name given to the .html file produced.
`append`	A logical. If multiple tests are conducted using the same filename, then the .html file will be appended if TRUE or over-written if FALSE.
`label`	A character. The should give a description of the experiment used to obtain the gene set.
`typeGeneSet`	A character: this character vector should adequately describe the gene set itself.
`cs`	A numeric. This gives a cut-off for the size of the categories in which we conduct the test.